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Bruno Amati

Senior Researcher - Center Coordinator
Center Director

Center

CGS@SEMM Milano

Contacts

Coordinator, Center for Genomic Science of IIT@SEMM, Fondazione Istituto Italiano di Tecnologia (IIT), Via Adamello 16

About

Academic education

1981-1985       Undergraduate studies in Biology, University of Geneva, Switzerland.

1985               Diploma in Biology, University of Geneva, Switzerland.

1986               Certificate of specialization in Molecular Biology (equ. Masters). University of Geneva.

1990               Ph.D. thesis, Swiss Institute for Experimental Cancer Research (ISREC) and University of Lausanne, Switzerland.

Positions Held and Research experience

1984/85          Diploma thesis: "Isolation of nuclei from the yeast Saccharomyces cerevisiae and studies on higher order chromatin structure".
Prof. Ulrich K. Laemmli’ s laboratory, Department of Molecular Biology, University of Geneva, Switzerland.

1985/86          Certificate thesis: "Isolation and sequencing of cDNA clones encoding cytochrome c in the green alga Chlamydomonas reinhardtii".
Prof. Jean-David Rochaix’ s laboratory, Department of Molecular Biology, University of Geneva, Switzerland.

1986-1990       Ph.D. thesis: "Saccharomyces cerevisiae as a model system for eukaryotic chromosome structure and function: mapping of nuclear scaffold attached regions in close relationship with genomic origins of DNA replication".
Dr. Susan M. Gasser’ s laboratory, ISREC, Lausanne, Switzerland.

1990-1993       Post-doctoral fellow in Dr. Hartmut Land’ s laboratory, Imperial Cancer Research Fund (ICRF), London.
Research field: molecular oncology, gene regulation. Function of the human c-Myc oncoprotein in transcription, cellular growth control and oncogenesis.

1994-1999       Associate Scientist (junior group leader) at ISREC, as recipient of a START fellowship from the Swiss National Science Foundation.
Same field as above, with a particular focus on cell cycle control.

1999-2002       Research Fellow (senior group leader) at DNAX, Palo Alto CA, USA.
Same field as above, with additional focus on chromatin modifications and protein-genome interactions. Knockout of cell cycle regulatory genes in the mouse.

Since Jan. 2003   
Division Director, Dept. of Molecular Oncology, European Institute of Oncology (IEO), Milan.

Since Feb, 2011    Coordinator, Center for Genomic Science of IIT@SEMM, Fondazione Istituto Italiano di Tecnologia (IIT), Milan, Italy.

Current research fields: Modeling of oncogenic and tumor suppressor pathways in cultured cells and mouse models; functional genomics: shRNA-based reverse-genetic screens; genome/epigenome/transcriptome analysis based on next-generation sequencing technologies.

 

Selected Publications

(since 2001) *Corresponding Author

  1. Frank SR, Schroeder M, Fernandez P, Taubert S and Amati B.
    Binding of c-Myc to chromatin mediates mitogen-induced acetylation of histone H4 and gene activation.
    Genes Dev. 15, 2069-2082 (2001) [PubMed]
  2. Geng Y, Yu Q, Whoriskey W, Dick F, Tsai KY, Ford HL, Biswas DK, Pardee AB, Amati B, Jacks T, Richardson A, Dyson N and Sicinski P.*
    Expression of cyclins E1 and E2 during mouse development and in neoplasia.
    Proc Natl Acad Sci U S A 98, 13138-13143 (2001) [PubMed]
  3. Deleu L, Shellard S, Alevizopoulos K, Amati B and Land H.* 
    Recruitment of TRRAP required for oncogenic transformation by E1A.
    Oncogene 20, 8270-8275 (2001) [PubMed]
  4. Fernandez PC, Frank SR, Wang L, Schroeder M, Liu S, Greene J, Cocito A, and Amati B.
    Genomic targets of the human c-Myc protein.
    Genes Dev. 17, 1115-1129 (2003) [PubMed]
  5. Frank SR, Parisi T, Taubert S, Fernandez P, Fuchs M, Chan HM, Livingston DM and 
    Amati B.

    Myc recruits the Tip60 histone acetyltransferase complex to chromatin. 
    EMBO Rep. 4, 575-580 (2003) [PubMed]
  6. Rascle A*, Johnston JA and Amati B.
    A deacetylase activity is required for recruitment of the basal transcription machinery and transactivation by STAT5. 
    Mol Cell Biol. 23, 4162-4173 (2003) [PubMed]
  7. Parisi T, Beck AR, Rougier N, McNeil T, Lucian L, Werb Z and Amati B.
    Cyclins E1 and E2 are required for endoreplication in placental trophoblast giant cells. 
    EMBO J. 22, 4794-4803 (2003) [PubMed]
  8. Grandori C*, Wu KJ, Fernandez P, Ngouenet C, Grim J, Clurman BE, Moser MJ, Oshima J, Russell D, Swisshelm K, Frank SR, Amati B, Dalla-Favera R and Monnat RJ Jr. 
    Werner syndrome protein limits MYC-induced cellular senescence. 
    Genes & Development 17, 1569-1574 (2003) [PubMed]
  9. Taubert S, Gorrini C, Frank S., Parisi T, Fuchs M, Chan HM, Livingston DM and Amati B*
    E2F-dependent histone acetylation and recruitment of the Tip60 acetyltransferase complex to chromatin in late G1.
    Mol Cell Biol. 24, 4546-4556 (2004) [PubMed]
  10. Amati B.
    Myc degradation: Dancing with ubiquitin ligases.
    PNAS 101, 8843-8844 (2004) [PubMed]
  11. Brenner C, Deplus R, Didelot C, Loriot A, Vire E, De Smet C, Gutierrez A, Danovi D, Bernard D, Boon T, Pelicci PG, Amati B, Kouzarides T, de Launoit Y, Di Croce L and 
    Fuks F. * 
    Myc represses transcription through recruitment of DNA methyltransferase corepressor. 
    EMBO Journal 24, 336-346 (2005) [PubMed]
  12. Guccione E, Martinato F, Finocchiaro G, Luzi L, Tizzoni L, Dall'Olio V, Zardo G, Nervi C, Loris B, Amati B.
    Myc-binding site recognition in the human genome is determined by Chromatin context. 
    Nat Cell Biol. 8, 764-770 (2006) [PubMed]
  13. Squatrito M, Gorrini C, Amati B.*
    Tip60 in DNA damage response and growth control: many tricks in one HAT.
    Trends Cell Biol. 16, 433-442 (2006) [PubMed]
  14. Amati B and Sanchez-Arèvalo Lobo VJ* 
    Myc Degradation: deubiquitinating enzymes enter the dance.
    Nature Cell Biol. 9, 729-732 (2007) [PubMed]
  15. Gorrini C, Squatrito M, Luise C, Syed N, Perna D, Wark L, Martinato F, Sardella D, Verrecchia A, Bennett S, Confalonieri S, Cesaroni M, Marchesi F, Gasco M, Scanziani E, Capra M, Mai S, Nuciforo P, Crook T, Lough J and Amati B.* 
    Tip60 is a haplo-insufficient tumour suppressor required for an oncogene-induced DNA damage response.
    Nature 448, 1063-1067 (2007) [PubMed]
  16. Guccione E, Bassi C, Casadio F, Martinato F, Cesaroni M, Schuchlautz H, Lüscher B andAmati B.*
    Methylation of histone H3R2 by PRMT6 and H3K4 by an MLL complex are mutually exclusive.
    Nature 449, 933-937 (2007) [PubMed]
  17. Martinato F, Cesaroni M, Amati B* and Guccione E.*
    Analysis of Myc-induced histone modifications on target chromatin.
    PLoS ONE 3, e3650 (2008) [PubMed]
  18. Bonetti P, Davoli T, Sironi C, Amati B, Pelicci PG and Colombo E.* 
    Nucleophosmin and its AML-associated mutant regulate c-Myc turnover through Fbw7 gamma.
    J Cell Biol 182, 19-26 (2008) [PubMed]
  19. De Filippis L, Ferrari D, Rota Nodari L, Amati B, Snyder E, Vescovi AL.*
    Immortalization of human neural stem cells with the c-myc mutant T58A
    PLoS ONE 3, e3310 (2008) [PubMed]
  20. Smith AP, Verrecchia A, Fagà G, Doni M, Martinato F, Guccione E and Amati B*
    A positive role for Myc in TGFβ-induced Snail transcription and Epithelial to Mesenchymal Transition.
    Oncogene 28, 422-430 (2009) [PubMed]
  21. Bua DJ, Kuo AJ, Cheung P, Liu CL, Migliori V, Espejo A, Casadio F, Bassi C, Amati B, Bedford MT, Guccione E, Gozani O.*
    Epigenome microarray platform for proteome-wide dissection of chromatin-signaling networks.
    PLoS ONE 4, e6789 (2009) [PubMed]
  22. Campaner S, Doni M, Hydbring P, Verrecchia A, Bianchi L, Sardella D, Schleker T, Perna D, Tronnersjö S, Murga M, Fernandez-Capetillo O, Barbacid M, Larsson LG and Amati B*
    Cdk2 suppresses cellular senescence induced by the c-myc oncogene
    Nature Cell Biol. 12, 54-59 (2010) [PubMed]
  23. Pistoni M, Verrecchia A, Doni M, Guccione E and Amati B*
    Chromatin association and regulation of rDNA transcription by the Ras-family protein RasL11a.
    EMBO Journal 29, 1215-1224 (2010) [PubMed]
  24. Müller J, Samans B, van Riggelen J, Fagà G, Peh KNR, Wei CL, Müller H, Amati B, Felsher D and Eilers M.*
    TGFβ-dependent gene expression shows that senescence correlates with abortive differentiation along several lineages in Myc-induced lymphomas. 
    Cell Cycle 9, 4622-4626 (2010) [PubMed]
  25. Miluzio A, Beugnet A, Grosso S, Brina D, Mancino M, Campaner S, Amati B, de Marco A, Biffo S*
    Impairment of cytoplasmic eIF6 activity restricts lymphomagenesis and tumor progression without affecting normal growth.
    Cancer Cell, 19, 765-775 (2011) [PubMed]
  26. Campaner S, Spreafico F, Burgold T, Doni M, Rosato U, Amati B* and Testa G.*
    The methyltransferase Setd7 is dispensable for the p53-mediated DNA damage response.
    Mol Cell 43, 681-688 (2011) [PubMed]
  27. Perna D, Fagà G, Verrecchia A, Gorski MM, Barozzi I, Narang V, Khng J, Lim KC, Sung WK, Sanges R, Stupka E, Oskarsson T, Trumpp A, Wei CL, Müller H and Amati B.*
    Genome-wide mapping of Myc binding and gene regulation in serum-stimulated fibroblasts.
    Oncogene in press (2011) Adv. Online Publ.: Aug 22. doi: 10.1038/onc.2011.359 [PubMed]
  28. Murga M, Campaner S, Lopez-Contreras AJ, Toledo LI, Soria R, Montaña MF, D'Artista L, Schleker T, Guerra C, Garcia E, Barbacid M, Hidalgo M, Amati B and 
    Fernandez-Capetillo O.*
    Exploiting oncogene-induced replicative stress for the selective killing of Myc-driven tumors.
    Nature Struct & Mol Biol. 18, 1331-1335 (2011) [Pubmed]
  29. Migliori V, Muller J, Phalke S, Low D, Bezzi M, Mok WC, Sahu S.K., Gunaratn J, Capasso P, Bassi C, Cecatiello V, De Marco A, Blackstock W, Kuznetsov V, Amati B, Mapelli M and Guccione E.*
    Symmetric dimethylation of H3R2 is a newly identified histone mark that supports euchromatin maintenance
    Nature Struct & Mol Biol. 19, 136-144 (2012) [PubMed]

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I numeri di IIT

L’Istituto Italiano di Tecnologia (IIT) è una fondazione di diritto privato - cfr. determinazione Corte dei Conti 23/2015 “IIT è una fondazione da inquadrare fra gli organismi di diritto pubblico con la scelta di un modello di organizzazione di diritto privato per rispondere all’esigenza di assicurare procedure più snelle nella selezione non solo nell’ambito nazionale dei collaboratori, scienziati e ricercatori ”.

IIT è sotto la vigilanza del Ministero dell'Istruzione, dell'Università e della Ricerca e del Ministero dell'Economia e delle Finanze ed è stato istituito con la Legge 326/2003. La Fondazione ha l'obiettivo di promuovere l'eccellenza nella ricerca di base e in quella applicata e di favorire lo sviluppo del sistema economico nazionale. La costruzione dei laboratori iniziata nel 2006 si è conclusa nel 2009.

Lo staff complessivo di IIT conta circa 1440 persone. L’area scientifica è rappresentata da circa l’85% del personale. Il 45% dei ricercatori proviene dall’estero: di questi, il 29% è costituito da stranieri provenienti da oltre 50 Paesi e il 16% da italiani rientrati. Oggi il personale scientifico è composto da circa 60 principal investigators, circa 110 ricercatori e tecnologi di staff, circa 350 post doc, circa 500 studenti di dottorato e borsisti, circa 130 tecnici. Oltre 330 posti su 1400 creati su fondi esterni. Età media 34 anni. 41% donne / 59 % uomini.

Nel 2015 IIT ha ricevuto finanziamenti pubblici per circa 96 milioni di euro (80% del budget), conseguendo fondi esterni per 22 milioni di euro (20% budget) provenienti da 18 progetti europei17 finanziamenti da istituzioni nazionali e internazionali, circa 60 progetti industriali

La produzione di IIT ad oggi vanta circa 6990 pubblicazioni, oltre 130 finanziamenti Europei e 11 ERC, più di 350 domande di brevetto attive, oltre 12 start up costituite e altrettante in fase di lancio. Dal 2009 l’attività scientifica è stata ulteriormente rafforzata con la creazione di dieci centri di ricerca nel territorio nazionale (a Torino, Milano, Trento, Parma, Roma, Pisa, Napoli, Lecce, Ferrara) e internazionale (MIT ed Harvard negli USA) che, unitamente al Laboratorio Centrale di Genova, sviluppano i programmi di ricerca del piano scientifico 2015-2017.

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IIT: the numbers

Istituto Italiano di Tecnologia (IIT) is a public research institute that adopts the organizational model of a private law foundation. IIT is overseen by Ministero dell'Istruzione, dell'Università e della Ricerca and Ministero dell'Economia e delle Finanze (the Italian Ministries of Education, Economy and Finance).  The Institute was set up according to Italian law 326/2003 with the objective of promoting excellence in basic and applied research andfostering Italy’s economic development. Construction of the Laboratories started in 2006 and finished in 2009.

IIT has an overall staff of about 1,440 people. The scientific staff covers about 85% of the total. Out of 45% of researchers coming from abroad 29% are foreigners coming from more than 50 countries and 16% are returned Italians. The scientific staff currently consists of approximately 60 Principal Investigators110 researchers and technologists350 post-docs and 500 PhD students and grant holders and 130 technicians. External funding has allowed the creation of more than 330 positions . The average age is 34 and the gender balance proportion  is 41% female against 59% male.

In 2015 IIT received 96 million euros in public funding (accounting for 80% of its budget) and obtained 22 million euros in external funding (accounting for 20% of its budget). External funding comes from 18 European Projects, other 17 national and international competitive projects and approximately 60 industrial projects.

So far IIT accounts for: about 6990 publications, more than 130 European grants and 11 ERC grants, more than 350 patents or patent applications12 up start-ups and as many  which are about to be launched. The Institute’s scientific activity has been further strengthened since 2009 with the establishment of 11 research nodes throughout Italy (Torino, Milano, Trento, Parma, Roma, Pisa, Napoli, Lecce, Ferrara) and abroad (MIT and Harvard University, USA), which, along with the Genoa-based Central Lab, implement the research programs included in the 2015-2017 Strategic Plan.